Fix startup #228
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Fix startup #228
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Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Bumps [astral-sh/setup-uv](https://github.com/astral-sh/setup-uv) from 4 to 5. - [Release notes](https://github.com/astral-sh/setup-uv/releases) - [Commits](astral-sh/setup-uv@v4...v5) --- updated-dependencies: - dependency-name: astral-sh/setup-uv dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <support@github.com>
…ral-sh/setup-uv-5
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
The Algorithms class fits better as a data type
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Updated several functions to use clearer argument names and added detailed docstrings following the Google style guide. Removed unnecessary async/await patterns where not needed, enhancing readability and maintainability. Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: mumo-dev <samuelmumo@Samuels-MacBook-Pro.local>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Co-authored-by: SarahNakamura <snakamura@unomaha.edu>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
# Conflicts: # .github/workflows/continuous_integration.yml # main/COMO.ipynb # main/como/__init__.py # main/como/combine_distributions.py # main/como/create_context_specific_model.py # main/como/data_types.py # main/como/merge_xomics.py # main/como/proteomics_gen.py # main/como/rnaseq_gen.py # main/como/rnaseq_preprocess.py # main/como/utils.py # main/data/boundary_rxns/naiveB_boundary_rxns.csv # pyproject.toml # ruff.toml # tests/unit/test_data_types.py # tests/unit/test_rnaseq_preprocess.py # uv.lock
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
…Enum` Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
Signed-off-by: Josh Loecker <joshloecker@icloud.com>
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This pull request contains a number of modifications to fix a new installation of COMO